Co-occurrence of ARGs and MGEs in nanopore reads (top) and illumina contigs (bottom).

Gene organisation of representative sequences from (A) ICU cages (B) Laundry Trolley and (C) Mop Bucket. Resistance genes, light blue: trimethoprim; red: sulphonamides; purple: beta-lactams; yellow: aminoglycosides; grey: rifamycin; pink: macrolides; blue: chloramphenicol; brown: tetracycline; luminous green: fluoroquinolone; dark orange: quaternary ammonium compounds. Mobile Genetic Elements, dark blue: transposases; green: integrases; light orange: plasmid-associated. HP: Hypothetical Proteins.